| add_fragments(core::fragment::FragSetOP fragset) | protocols::loops::loop_mover::LoopMover | |
| apply(core::pose::Pose &pose) override | protocols::loops::loop_mover::refine::LoopMover_Refine_CCD | virtual |
| checkpoints_ | protocols::loops::loop_mover::LoopMover | private |
| clear_fragments() | protocols::loops::loop_mover::LoopMover | |
| clear_info() | protocols::moves::Mover | inlinevirtual |
| clone() const override | protocols::loops::loop_mover::refine::LoopMover_Refine_CCD | virtual |
| create() | protocols::moves::Mover | virtual |
| current_cycle_number() const | protocols::loops::loop_mover::refine::LoopMover_Refine_CCD | inline |
| current_cycle_number_ | protocols::loops::loop_mover::refine::LoopMover_Refine_CCD | private |
| current_job_ | protocols::moves::Mover | private |
| current_tag_ | protocols::moves::Mover | private |
| debug_ | protocols::loops::loop_mover::refine::LoopMover_Refine_CCD | private |
| debugging_output(core::pose::Pose &pose) | protocols::loops::loop_mover::refine::LoopMover_Refine_CCD | private |
| enforce_false_movemap(MoveMapOP &mm) const | protocols::loops::loop_mover::LoopMover | protected |
| false_movemap() const | protocols::loops::loop_mover::LoopMover | |
| false_movemap(MoveMapOP const &mm) | protocols::loops::loop_mover::LoopMover | |
| false_movemap_ | protocols::loops::loop_mover::LoopMover | private |
| flank_residue_min() const | protocols::loops::loop_mover::refine::LoopMover_Refine_CCD | inline |
| flank_residue_min_ | protocols::loops::loop_mover::refine::LoopMover_Refine_CCD | private |
| frag_libs() const | protocols::loops::loop_mover::LoopMover | |
| frag_libs_ | protocols::loops::loop_mover::LoopMover | private |
| fresh_instance() const | protocols::moves::Mover | virtual |
| get_additional_output() | protocols::moves::Mover | virtual |
| get_checkpoints() | protocols::loops::loop_mover::LoopMover | |
| get_current_job() const | protocols::moves::Mover | |
| get_current_tag() const | protocols::moves::Mover | inline |
| get_input_pose() const | protocols::moves::Mover | |
| get_last_move_status() const | protocols::moves::Mover | |
| get_loops() const | protocols::loops::loop_mover::refine::LoopMover_Refine_CCD | |
| get_name() const override | protocols::loops::loop_mover::refine::LoopMover_Refine_CCD | virtual |
| get_native_pose() const | protocols::moves::Mover | |
| get_new_ramping_scorefxn() | protocols::loops::loop_mover::refine::LoopMover_Refine_CCD | private |
| get_packer_task(core::pose::Pose const &pose) | protocols::loops::loop_mover::refine::LoopMover_Refine_CCD | private |
| get_redesign_loop() | protocols::loops::loop_mover::refine::LoopMover_Refine_CCD | inline |
| get_self_ptr() const | protocols::moves::Mover | inline |
| get_self_ptr() | protocols::moves::Mover | inline |
| get_self_weak_ptr() const | protocols::moves::Mover | inline |
| get_self_weak_ptr() | protocols::moves::Mover | inline |
| get_task_factory() const | protocols::loops::loop_mover::refine::LoopMover_Refine_CCD | |
| get_type() const | protocols::moves::Mover | inline |
| guarded_loops_ | protocols::loops::loop_mover::LoopMover | private |
| increase_chainbreak_weight_and_update_monte_carlo(core::Size iteration_number, core::scoring::ScoreFunctionOP local_scorefxn, protocols::moves::MonteCarlo &mc, core::pose::Pose &pose) | protocols::loops::loop_mover::refine::LoopMover_Refine_CCD | private |
| info() | protocols::moves::Mover | inlinevirtual |
| info() const | protocols::moves::Mover | inlinevirtual |
| info_ | protocols::moves::Mover | private |
| init() | protocols::loops::loop_mover::LoopMover | private |
| initForEqualOperatorAndCopyConstructor(LoopMover &lhs, LoopMover const &rhs) | protocols::loops::loop_mover::LoopMover | private |
| inner_cycles() const | protocols::loops::loop_mover::refine::LoopMover_Refine_CCD | inline |
| inner_cycles_ | protocols::loops::loop_mover::refine::LoopMover_Refine_CCD | private |
| input_pose_ | protocols::moves::Mover | private |
| last_proposal_density_ratio() | protocols::moves::Mover | inlinevirtual |
| last_status_ | protocols::moves::Mover | private |
| LoopMover() | protocols::loops::loop_mover::LoopMover | |
| LoopMover(protocols::loops::LoopsOP loops_in) | protocols::loops::loop_mover::LoopMover | |
| LoopMover(protocols::loops::LoopsFileData const &loops_from_file) | protocols::loops::loop_mover::LoopMover | |
| LoopMover(protocols::loops::GuardedLoopsFromFileOP guarded_loops) | protocols::loops::loop_mover::LoopMover | |
| LoopMover(LoopMover const &rhs) | protocols::loops::loop_mover::LoopMover | |
| LoopMover_Refine_CCD() | protocols::loops::loop_mover::refine::LoopMover_Refine_CCD | |
| LoopMover_Refine_CCD(protocols::loops::LoopsOP loops_in) | protocols::loops::loop_mover::refine::LoopMover_Refine_CCD | |
| LoopMover_Refine_CCD(protocols::loops::LoopsOP loops_in, core::scoring::ScoreFunctionOP scorefxn) | protocols::loops::loop_mover::refine::LoopMover_Refine_CCD | |
| loops(protocols::loops::LoopsOP lptr) | protocols::loops::loop_mover::LoopMover | |
| loops(LoopsFileData const &loop_file_data) | protocols::loops::loop_mover::LoopMover | |
| loops(protocols::loops::loops_definers::LoopsDefinerOP setting) | protocols::loops::loop_mover::LoopMover | |
| loops(protocols::loops::GuardedLoopsFromFileOP guarded_loops) | protocols::loops::loop_mover::LoopMover | |
| loops() const | protocols::loops::loop_mover::LoopMover | |
| loops() | protocols::loops::loop_mover::LoopMover | |
| loops_from_observer_cache_ | protocols::loops::loop_mover::LoopMover | private |
| max_inner_cycles(core::Size value) | protocols::loops::loop_mover::refine::LoopMover_Refine_CCD | inline |
| max_inner_cycles_ | protocols::loops::loop_mover::refine::LoopMover_Refine_CCD | private |
| move_map() const | protocols::loops::loop_mover::refine::LoopMover_Refine_CCD | |
| move_map(core::kinematics::MoveMapOP mm) | protocols::loops::loop_mover::refine::LoopMover_Refine_CCD | |
| move_map_ | protocols::loops::loop_mover::refine::LoopMover_Refine_CCD | private |
| move_map_factory_ | protocols::loops::loop_mover::refine::LoopMover_Refine_CCD | private |
| MoveMapOP typedef | protocols::loops::loop_mover::LoopMover | |
| Mover() | protocols::moves::Mover | |
| Mover(std::string const &type_name) | protocols::moves::Mover | |
| mover_name() | protocols::loops::loop_mover::refine::LoopMover_Refine_CCD | static |
| name() | protocols::moves::Mover | inlinestatic |
| native_pose_ | protocols::moves::Mover | private |
| operator=(LoopMover const &rhs) | protocols::loops::loop_mover::LoopMover | |
| original_fold_tree_ | protocols::loops::loop_mover::refine::LoopMover_Refine_CCD | private |
| outer_cycles(core::Size value) | protocols::loops::loop_mover::refine::LoopMover_Refine_CCD | inline |
| outer_cycles_ | protocols::loops::loop_mover::refine::LoopMover_Refine_CCD | private |
| packing_isolated_to_active_loops_ | protocols::loops::loop_mover::refine::LoopMover_Refine_CCD | private |
| parse_my_tag(utility::tag::TagCOP tag, basic::datacache::DataMap &) override | protocols::loops::loop_mover::refine::LoopMover_Refine_CCD | virtual |
| Pose typedef | protocols::moves::Mover | |
| PoseCOP typedef | protocols::moves::Mover | |
| provide_citation_info(basic::citation_manager::CitationCollectionList &) const | protocols::moves::Mover | virtual |
| provide_xml_schema(utility::tag::XMLSchemaDefinition &xsd) | protocols::loops::loop_mover::refine::LoopMover_Refine_CCD | static |
| ramping_scorefxn() | protocols::loops::loop_mover::refine::LoopMover_Refine_CCD | private |
| ramping_scorefxn_ | protocols::loops::loop_mover::refine::LoopMover_Refine_CCD | private |
| read_options() | protocols::loops::loop_mover::refine::LoopMover_Refine_CCD | protected |
| redesign_loop_ | protocols::loops::loop_mover::refine::LoopMover_Refine_CCD | protected |
| register_options() | protocols::moves::Mover | inlinestatic |
| reinitialize_for_each_job() const | protocols::moves::Mover | virtual |
| reinitialize_for_new_input() const | protocols::moves::Mover | virtual |
| repack_neighbors(bool s) | protocols::loops::loop_mover::refine::LoopMover_Refine_CCD | inline |
| repack_neighbors() const | protocols::loops::loop_mover::refine::LoopMover_Refine_CCD | inline |
| repack_neighbors_ | protocols::loops::loop_mover::refine::LoopMover_Refine_CCD | private |
| repack_period(core::Size value) | protocols::loops::loop_mover::refine::LoopMover_Refine_CCD | inline |
| repack_period() const | protocols::loops::loop_mover::refine::LoopMover_Refine_CCD | inline |
| repack_period_ | protocols::loops::loop_mover::refine::LoopMover_Refine_CCD | private |
| reset_status() | protocols::moves::Mover | |
| resolve_loop_indices(core::pose::Pose const &p) | protocols::loops::loop_mover::LoopMover | protected |
| scorefxn() const | protocols::loops::loop_mover::LoopMover | |
| scorefxn_ | protocols::loops::loop_mover::LoopMover | private |
| set_current_job(protocols::jobdist::BasicJobCOP job) | protocols::moves::Mover | |
| set_current_tag(std::string const &new_tag) | protocols::moves::Mover | inlinevirtual |
| set_default_settings() | protocols::loops::loop_mover::refine::LoopMover_Refine_CCD | |
| set_extended_torsions(core::pose::Pose &pose, Loop const &loop) | protocols::loops::loop_mover::LoopMover | virtual |
| set_flank_residue_min(bool value) | protocols::loops::loop_mover::refine::LoopMover_Refine_CCD | inline |
| set_fold_tree_from_loops(bool const s) | protocols::loops::loop_mover::refine::LoopMover_Refine_CCD | inline |
| set_fold_tree_from_loops() const | protocols::loops::loop_mover::refine::LoopMover_Refine_CCD | inline |
| set_fold_tree_from_loops_ | protocols::loops::loop_mover::refine::LoopMover_Refine_CCD | private |
| set_guarded_loops_not_in_charge() | protocols::loops::loop_mover::LoopMover | |
| set_input_pose(PoseCOP pose) | protocols::moves::Mover | virtual |
| set_last_move_status(MoverStatus status) | protocols::moves::Mover | protected |
| set_loops_from_pose_observer_cache(core::pose::Pose const &pose) | protocols::loops::loop_mover::LoopMover | protected |
| set_native_pose(PoseCOP pose) | protocols::moves::Mover | virtual |
| set_redesign_loop(bool value=true) | protocols::loops::loop_mover::refine::LoopMover_Refine_CCD | inline |
| set_scorefxn(const core::scoring::ScoreFunctionOP score_in) | protocols::loops::loop_mover::LoopMover | |
| set_task_factory(core::pack::task::TaskFactoryCOP task_factory_in) | protocols::loops::loop_mover::refine::LoopMover_Refine_CCD | |
| set_type(std::string const &setting) | protocols::moves::Mover | inline |
| set_use_loops_from_observer_cache(bool const loops_from_observer_cache) | protocols::loops::loop_mover::LoopMover | protected |
| setup_foldtree_and_add_cutpoint_variants(core::pose::Pose &pose) | protocols::loops::loop_mover::refine::LoopMover_Refine_CCD | private |
| setup_movemap(core::pose::Pose const &pose, protocols::loops::Loops const &loops, utility::vector1< bool > const &allow_repack, core::kinematics::MoveMapOP &movemap) | protocols::loops::loop_mover::refine::LoopMover_Refine_CCD | |
| show(std::ostream &output=std::cout) const override | protocols::loops::loop_mover::refine::LoopMover_Refine_CCD | virtual |
| Strings typedef | protocols::moves::Mover | |
| TagCOP typedef | protocols::moves::Mover | |
| task_factory_ | protocols::loops::loop_mover::refine::LoopMover_Refine_CCD | protected |
| temp_final(core::Real value) | protocols::loops::loop_mover::refine::LoopMover_Refine_CCD | inline |
| temp_final_ | protocols::loops::loop_mover::refine::LoopMover_Refine_CCD | private |
| temp_initial(core::Real value) | protocols::loops::loop_mover::refine::LoopMover_Refine_CCD | inline |
| temp_initial_ | protocols::loops::loop_mover::refine::LoopMover_Refine_CCD | private |
| test_move(Pose &pose) | protocols::moves::Mover | inlinevirtual |
| torsion_features_string(core::pose::Pose const &pose) const | protocols::loops::loop_mover::LoopMover | |
| tr() const override | protocols::loops::loop_mover::refine::LoopMover_Refine_CCD | protectedvirtual |
| type(const std::string &type_in) | protocols::moves::Mover | inline |
| type() const | protocols::moves::Mover | inline |
| type_ | protocols::moves::Mover | private |
| use_loops_from_observer_cache() const | protocols::loops::loop_mover::LoopMover | protected |
| user_defined_move_map_ | protocols::loops::loop_mover::refine::LoopMover_Refine_CCD | private |
| ~LoopMover() override | protocols::loops::loop_mover::LoopMover | |
| ~LoopMover_Refine_CCD() override | protocols::loops::loop_mover::refine::LoopMover_Refine_CCD | |
